Pedigree Finder: A web-based crop pedigree viewer for graph databases
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- Kajiya-Kanegae Hiromi
- Research Center for Agricultural Information Technology, NARO
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- Matsushita Kei
- Institute of Crop Science, NARO
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- Hayashi Takeshi
- Research Center for Agricultural Information Technology, NARO
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- Kawashima Shuichi
- Database Center for Life Science, DS, ROIS
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- Goto Akitoshi
- Research Center for Agricultural Information Technology, NARO Institute of Crop Science, NARO
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- Takezaki Akane
- Institute of Agricultural Machinery, NARO
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- Yano Masahiro
- Research Center for Agricultural Information Technology, NARO
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- Kikui Genichiro
- Research Center for Agricultural Information Technology, NARO
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- Yonemaru Jun-Ichi
- Research Center for Agricultural Information Technology, NARO Institute of Crop Science, NARO
Bibliographic Information
- Other Title
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- 系譜情報グラフデータベース「Pedigree Finder」
- ケイフ ジョウホウ グラフデータベース 「 Pedigree Finder 」
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Abstract
<p>Accurate crop pedigree information is essential for breeding programs, especially to make better decisions on the breeding materials to be selected in crossings. As the available tools for facilitating pedigree analysis and visualization are insufficient, breeders use a limited pedigree chart to trace the relationships between crop varieties. To resolve this problem, we have developed a web-based pedigree viewer for graph databases, “Pedigree Finder” (https://pedigree.db.naro.go.jp/), that facilitates the effective utilization of pedigree data sets for breeding programs and crop data analysis. For data normalization, the ontologies and data formats used to describe pedigree information have been standardized. Pedigree, genomic, and phenotypic data can be integrated by assigning and applying unique identifiers to different crop varieties. The Resource Description Framework (RDF) was adopted as the data model to enhance commonality and persistence, and an RDF graph was constructed to visualize the pedigree network. This semantic web technology enables advanced search functions and allows for the blending of data sets from disparate sources using an RDF model. “Pedigree Finder” provides an integrated data-driven framework for the appropriate selection of breeding materials, understanding of genetic correlations between phenotypes and pedigrees in breeding programs, and promotion of crop genetics research.</p>
Journal
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- Breeding Research
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Breeding Research 24 (2), 115-123, 2022-12-01
Japanese Society of Breeding
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Keywords
Details 詳細情報について
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- CRID
- 1390013032132992512
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- NII Book ID
- AA11317194
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- ISSN
- 13481290
- 13447629
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- NDL BIB ID
- 032590405
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- Text Lang
- ja
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- Data Source
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- JaLC
- NDL
- Crossref
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- Abstract License Flag
- Disallowed